ArticleGenetics2008
On the evolution and expression of Chlamydomonas reinhardtii nucleus-encoded transfer RNA genes.
Article in Genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
22 citing papers in PubMed, 34 citations in OpenAlex.
- From water to land: evolution of tRNA gene repertoires in photosynthetic organisms.The EMBO journal · 2026Review
- Multilevel genomic constraints shape nuclear tRNA gene organization in plants.The Plant journal : for cell and molecular biology · 2026Article
- Advances in methods for tRNA sequencing and quantification.Trends in genetics : TIG · 2024Review
- Adaptation of codon and amino acid use for translational functions in highly expressed cricket genes.BMC genomics · 2021Article
- Steady-state levels of imported tRNAs in Chlamydomonas mitochondria are correlated with both cytosolic and mitochondrial codon usages.Nucleic acids research · 2020Article
- Evidence of multifaceted functions of codon usage in translation within the model beetle Tribolium castaneum.DNA research : an international journal for rapid publication of reports on genes and genomes · 2019Article
- Cross-Kingdom Commonality of a Novel Insertion Signature of RTE-Related Short Retroposons.Genome biology and evolution · 2018Article
- Refining the Ambush Hypothesis: Evidence That GC- and AT-Rich Bacteria Employ Different Frameshift Defence Strategies.Genome biology and evolution · 2018Article
- Metabolic Labeling and Profiling of Transfer RNAs Using Macroarrays.Journal of visualized experiments : JoVE · 2018Article
- SPOt: A novel and streamlined microarray platform for observing cellular tRNA levels.PloS one · 2017Article
- Conserved 3' UTR stem-loop structure in L1 and Alu transposons in human genome: possible role in retrotransposition.BMC genomics · 2016Article
- Analysis of Translation Elongation Dynamics in the Context of an Escherichia coli Cell.Biophysical journal · 2016Article
- PlantRNA, a database for tRNAs of photosynthetic eukaryotes.Nucleic acids research · 2013Article
- RNA-Mediated Gene Duplication and Retroposons: Retrogenes, LINEs, SINEs, and Sequence Specificity.International journal of evolutionary biology · 2013Article
- Evolution of codon usage in the smallest photosynthetic eukaryotes and their giant viruses.Genome biology and evolution · 2013Article
- Parallel relaxation of stringent RNA recognition in plant and mammalian L1 retrotransposons.Molecular biology and evolution · 2012Article
- Co-evolution of mitochondrial tRNA import and codon usage determines translational efficiency in the green alga Chlamydomonas.PLoS genetics · 2012Article
- Mutation bias is the driving force of codon usage in the Gallus gallus genome.DNA research : an international journal for rapid publication of reports on genes and genomes · 2011Article
- Coadaptation of isoacceptor tRNA genes and codon usage bias for translation efficiency in Aedes aegypti and Anopheles gambiae.Insect molecular biology · 2011Article
- Effect of correlated tRNA abundances on translation errors and evolution of codon usage bias.PLoS genetics · 2010Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In Chlamydomonas reinhardtii, 259 tRNA genes were identified and classified into 49 tRNA isoaccepting families. By constructing phylogenetic trees, we determined the evolutionary history for each tRNA gene family. The majority of the tRNA sequences are more closely related to their plant counterparts than to animals ones. Northern experiments also permitted us to show that at least one member of each tRNA isoacceptor family is transcribed and correctly processed in vivo. A short stretch of T residues known to be a signal for termination of polymerase III transcription was found downstream of most tRNA genes. It allowed us to propose that the vast majority of the tRNA genes are expressed and to confirm that numerous tRNA genes separated by short spacers are indeed cotranscribed. Interestingly, in silico analyses and hybridization experiments show that the cellular tRNA abundance is correlated with the number of tRNA genes and is adjusted to the codon usage to optimize translation efficiency. Finally, we studied the origin of SINEs, short interspersed elements related to tRNAs, whose presence in Chlamydomonas is exceptional. Phylogenetic analysis strongly suggests that tRNA(Asp)-related SINEs originate from a prokaryotic-type tRNA either horizontally transferred from a bacterium or originally present in mitochondria or chloroplasts.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.